Atom Nomenclature for 6PO

The atom nomenclature in PDB data files was revised with the release of data in the PDB Format Version 3.0. These changes make the PDB atom names used by PDB compliant with existing IUPAC nomenclature for standard amino acid and nucleotides (Pure & Appl. Chem., 70, 117-142, 1998) with the exception of the well established convention for C-terminal atoms OXT and HXT. A small number of additional changes were introduced in Version 3 to make atom labeling more conventional. The following chemical diagrams and tables provide the correspondences between atom names used in Version 3 and Version 2 PDB formats.

Labeled Chemical Diagrams

Chemical diagram with format V3 atom labels (heavy atoms)
Chemical diagram with format V3 atom labels (all atoms)
Chemical diagram with format V2 atom labels (heavy atoms)
Chemical diagram with format V2 atom labels (all atoms)

Atom Name Correspondences for 6PO

Atom Name (V3) Atom Name (V2)
OP2 O2P
P P
OP1 O1P
O5' O5'
C5' C5'
C4' C4'
C3' C3'
O3' O3'
C2' C2'
O4' O4'
C1' C1'
N9 N9
C8 C8
N7 N7
C5 C5
C4 C4
C6 C6
N1 N1
C2 C2
N2 N2
N3 N3
O6 O6
C1X C1X
C2X C2X
C3X C3X
HOP2 HO2P
H5' H3
H5'' H4
H4' H5
H3' H6
HO3' H7
H2' H8
H2'' H9
H1' H10
H8 H11
HN1 H12
HN2 H13
H1X1 H14
H1X2 H15
H2X1 H16
H2X2 H17
H3X1 H18
H3X2 H19
H3X3 H20
OP3 O3P
HOP3 H1